对油茶基因组约10%覆盖度的DNA序列进行微卫星查找,共获得11 344个重复单元长度为1～6碱基的微卫星。在此基础上,通过对这些微卫星序列分析发现:在油茶基因组中长度为二核苷酸的微卫星重复单元最为丰富,占27.1%; 在单碱基重复和二碱基重复这两种类型中,最主要的优势重复单元分别是A/T以及AT/TA、AG/TC。三碱基、四碱基、五碱基重复类型中,(AAN)n、(AAAN)n和(AAAAN)n为对应的优势重复单元,这些优势重复单元中富含碱基A和T。油茶基因组中变异程度高的微卫星(长度≥20 bp)约占11.7%。分析还发现,除单核苷酸重复微卫星外,油茶基因组微卫星长度的变异速率与重复单元长度呈负相关,即油茶基因组中长度较短的微卫星变异速率较快,而较长的重复单元变异速度较慢,相对较为稳定。
Abstract
There were 11 344 microsatellites(SSRs)ranged from 1 to 6 bp detected by analyzing the DNA sequences covering about 10% of genome Camellia. Among these SSRs, dinucleotide repeats were most abundant(27.1%). For the composition of microsatellites, A/T repeats were the most frequent motifs in mononucleotide repeats, and AT/TA, AG/TC repeats were the most in dinucleotide repeats, while(AAN)n,(AAAN)n and(AAAAN)n repeats were dominant in tri-, tetra- and pentanucleotide repeats, respectively. All the dominant repeat motifs for different type of SSRs were abundant in nucleotides A and T. In Camellia genome, microsatellites longer than 20bp accounted for about 11.7% of the detected SSRs. Repeats, repeat motif lengths were found negatively correlated with the variation rate except mononucleotide repeats, thus, the shorter repeats would have faster substitution rate.
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基金
收稿日期:2011-09-08 修回日期:2011-12-12 基金项目:国家林业局林业公益性行业科研专项项目(200904002) 第一作者:史洁,博士生。*通信作者:施季森,教授。E-mail: jshi@njfu.edu.cn。引文格式:史洁,尹佟明,管宏伟,等. 油茶基因组微卫星特征分析[J]. 南京林业大学学报:自然科学版,2012,36(2):47-51.
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